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        If you use plots from MultiQC in a publication or presentation, please cite:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        To help with this, you can download publication details of the tools mentioned in this report:

        About MultiQC

        This report was generated using MultiQC, version 1.20 (c88459f)

        You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

        For more information about MultiQC, including other videos and extensive documentation, please visit http://multiqc.info

        You can report bugs, suggest improvements and find the source code for MultiQC on GitHub: https://github.com/MultiQC/MultiQC

        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2024-11-15, 19:00 EST based on data in: /mnt/c/Users/Derek/Downloads/Bulk-RNAseq-Analysis/results


        General Statistics

        Showing 176/176 rows and 4/6 columns.
        Sample Name% Dups% GCMedian Read LengthM Seqs
        SRR11772358_1
        73.0%
        47%
        76 bp
        25.8 M
        SRR11772358_2
        48.6%
        48%
        76 bp
        25.8 M
        SRR11772359_1
        55.7%
        49%
        76 bp
        3.5 M
        SRR11772359_2
        40.0%
        50%
        76 bp
        3.5 M
        SRR11772360_1
        49.9%
        49%
        76 bp
        2.8 M
        SRR11772360_2
        39.0%
        50%
        76 bp
        2.8 M
        SRR11772361_1
        67.6%
        47%
        76 bp
        1.6 M
        SRR11772361_2
        48.8%
        48%
        76 bp
        1.6 M
        SRR11772362_1
        75.4%
        57%
        76 bp
        4.9 M
        SRR11772362_2
        69.4%
        61%
        76 bp
        4.9 M
        SRR11772363_1
        60.7%
        46%
        76 bp
        3.7 M
        SRR11772363_2
        36.5%
        48%
        76 bp
        3.7 M
        SRR11772364_1
        55.2%
        47%
        76 bp
        4.2 M
        SRR11772364_2
        34.1%
        49%
        76 bp
        4.2 M
        SRR11772365_1
        59.8%
        47%
        76 bp
        3.7 M
        SRR11772365_2
        34.2%
        48%
        76 bp
        3.7 M
        SRR11772366_1
        53.8%
        48%
        76 bp
        4.1 M
        SRR11772366_2
        32.3%
        50%
        76 bp
        4.1 M
        SRR11772367_1
        67.3%
        51%
        76 bp
        4.4 M
        SRR11772367_2
        54.2%
        53%
        76 bp
        4.4 M
        SRR11772368_1
        77.2%
        48%
        76 bp
        24.9 M
        SRR11772368_2
        56.1%
        50%
        76 bp
        24.9 M
        SRR11772369_1
        58.1%
        49%
        76 bp
        4.1 M
        SRR11772369_2
        38.5%
        51%
        76 bp
        4.1 M
        SRR11772370_1
        72.8%
        51%
        76 bp
        7.6 M
        SRR11772370_2
        58.8%
        52%
        76 bp
        7.6 M
        SRR11772371_1
        69.2%
        59%
        76 bp
        6.8 M
        SRR11772371_2
        60.9%
        60%
        75 bp
        6.8 M
        SRR11772372_1
        86.8%
        57%
        54 bp
        5.7 M
        SRR11772372_2
        78.1%
        57%
        56 bp
        5.7 M
        SRR11772373_1
        79.9%
        60%
        75 bp
        6.2 M
        SRR11772373_2
        74.2%
        60%
        75 bp
        6.2 M
        SRR11772374_1
        83.2%
        56%
        76 bp
        6.0 M
        SRR11772374_2
        76.2%
        56%
        75 bp
        6.0 M
        SRR11772375_1
        85.6%
        58%
        75 bp
        6.2 M
        SRR11772375_2
        77.7%
        57%
        75 bp
        6.2 M
        SRR11772376_1
        82.0%
        56%
        75 bp
        5.9 M
        SRR11772376_2
        72.3%
        57%
        75 bp
        5.9 M
        SRR11772377_1
        74.9%
        48%
        76 bp
        7.5 M
        SRR11772377_2
        57.5%
        50%
        76 bp
        7.5 M
        SRR11772378_1
        67.5%
        54%
        76 bp
        6.9 M
        SRR11772378_2
        60.5%
        56%
        76 bp
        6.9 M
        SRR11772379_1
        82.2%
        60%
        75 bp
        5.7 M
        SRR11772379_2
        73.7%
        61%
        75 bp
        5.7 M
        SRR11772380_1
        60.2%
        48%
        76 bp
        7.3 M
        SRR11772380_2
        47.4%
        51%
        76 bp
        7.3 M
        SRR11772381_1
        77.8%
        50%
        76 bp
        8.1 M
        SRR11772381_2
        67.5%
        53%
        76 bp
        8.1 M
        SRR11772382_1
        95.0%
        48%
        76 bp
        7.2 M
        SRR11772382_2
        90.4%
        51%
        76 bp
        7.2 M
        SRR11772383_1
        62.3%
        48%
        76 bp
        7.9 M
        SRR11772383_2
        48.9%
        51%
        76 bp
        7.9 M
        SRR11772384_1
        73.7%
        46%
        76 bp
        6.9 M
        SRR11772384_2
        59.6%
        49%
        76 bp
        6.9 M
        SRR11772385_1
        66.2%
        47%
        76 bp
        8.2 M
        SRR11772385_2
        52.6%
        49%
        76 bp
        8.2 M
        SRR11772386_1
        75.5%
        57%
        76 bp
        6.7 M
        SRR11772386_2
        73.9%
        61%
        76 bp
        6.7 M
        SRR11772387_1
        84.2%
        53%
        76 bp
        10.4 M
        SRR11772387_2
        77.7%
        56%
        76 bp
        10.4 M
        SRR11772388_1
        59.6%
        49%
        76 bp
        6.6 M
        SRR11772388_2
        49.3%
        51%
        76 bp
        6.6 M
        SRR11772389_1
        82.6%
        48%
        76 bp
        8.0 M
        SRR11772389_2
        71.6%
        50%
        76 bp
        8.0 M
        SRR11772390_1
        40.3%
        48%
        76 bp
        4.4 M
        SRR11772390_2
        20.2%
        50%
        76 bp
        4.4 M
        SRR11772391_1
        69.9%
        46%
        76 bp
        5.3 M
        SRR11772391_2
        45.4%
        47%
        76 bp
        5.3 M
        SRR11772392_1
        32.0%
        45%
        76 bp
        4.6 M
        SRR11772392_2
        13.5%
        47%
        76 bp
        4.6 M
        SRR11772393_1
        31.8%
        45%
        76 bp
        4.4 M
        SRR11772393_2
        14.6%
        47%
        76 bp
        4.4 M
        SRR11772394_1
        67.1%
        45%
        76 bp
        3.8 M
        SRR11772394_2
        41.4%
        46%
        76 bp
        3.8 M
        SRR12340057_1
        57.7%
        46%
        76 bp
        8.3 M
        SRR12340057_2
        56.3%
        48%
        76 bp
        8.3 M
        SRR12340058_1
        83.5%
        49%
        76 bp
        8.4 M
        SRR12340058_2
        65.5%
        49%
        76 bp
        8.4 M
        SRR12340059_1
        79.6%
        48%
        76 bp
        10.0 M
        SRR12340059_2
        62.0%
        50%
        76 bp
        10.0 M
        SRR12340060_1
        79.5%
        47%
        76 bp
        6.8 M
        SRR12340060_2
        60.3%
        49%
        76 bp
        6.8 M
        SRR12340061_1
        66.0%
        48%
        76 bp
        8.3 M
        SRR12340061_2
        46.6%
        49%
        76 bp
        8.3 M
        SRR12340062_1
        66.1%
        48%
        76 bp
        6.5 M
        SRR12340062_2
        46.9%
        48%
        76 bp
        6.5 M
        SRR12340063_1
        78.5%
        48%
        76 bp
        8.4 M
        SRR12340063_2
        58.0%
        50%
        76 bp
        8.4 M
        SRR12340064_1
        73.3%
        47%
        76 bp
        7.7 M
        SRR12340064_2
        50.9%
        48%
        76 bp
        7.7 M
        SRR12340065_1
        81.8%
        50%
        76 bp
        10.7 M
        SRR12340065_2
        65.9%
        52%
        76 bp
        10.7 M
        SRR12340066_1
        82.1%
        58%
        76 bp
        10.0 M
        SRR12340066_2
        84.7%
        62%
        76 bp
        10.0 M
        SRR12340067_1
        77.9%
        57%
        76 bp
        8.8 M
        SRR12340067_2
        80.5%
        59%
        76 bp
        8.8 M
        SRR12340068_1
        81.1%
        50%
        76 bp
        10.0 M
        SRR12340068_2
        64.8%
        51%
        76 bp
        10.0 M
        SRR12340069_1
        67.2%
        45%
        76 bp
        8.6 M
        SRR12340069_2
        44.7%
        45%
        76 bp
        8.6 M
        SRR12340070_1
        34.8%
        45%
        76 bp
        9.6 M
        SRR12340070_2
        15.7%
        44%
        76 bp
        9.6 M
        SRR12340071_1
        36.1%
        44%
        76 bp
        9.0 M
        SRR12340071_2
        14.5%
        43%
        76 bp
        9.0 M
        SRR12340072_1
        82.5%
        50%
        76 bp
        10.6 M
        SRR12340072_2
        66.8%
        51%
        76 bp
        10.6 M
        SRR12340073_1
        54.8%
        44%
        76 bp
        12.4 M
        SRR12340073_2
        29.5%
        43%
        76 bp
        12.4 M
        SRR12340074_1
        58.3%
        45%
        76 bp
        8.3 M
        SRR12340074_2
        31.9%
        45%
        76 bp
        8.3 M
        SRR12340075_1
        44.7%
        44%
        76 bp
        7.7 M
        SRR12340075_2
        19.8%
        44%
        76 bp
        7.7 M
        SRR12340076_1
        81.3%
        44%
        76 bp
        7.5 M
        SRR12340076_2
        55.1%
        44%
        76 bp
        7.5 M
        SRR12340077_1
        76.2%
        46%
        76 bp
        8.4 M
        SRR12340077_2
        53.1%
        47%
        76 bp
        8.4 M
        SRR12340078_1
        72.0%
        48%
        76 bp
        6.3 M
        SRR12340078_2
        52.4%
        49%
        76 bp
        6.3 M
        SRR12340079_1
        84.2%
        49%
        76 bp
        8.0 M
        SRR12340079_2
        69.0%
        50%
        76 bp
        8.0 M
        SRR12340080_1
        85.4%
        49%
        76 bp
        7.1 M
        SRR12340080_2
        72.6%
        50%
        76 bp
        7.1 M
        SRR12340081_1
        81.7%
        47%
        76 bp
        9.8 M
        SRR12340081_2
        63.4%
        48%
        76 bp
        9.8 M
        SRR12340082_1
        87.8%
        48%
        76 bp
        8.4 M
        SRR12340082_2
        71.9%
        49%
        76 bp
        8.4 M
        SRR12340083_1
        82.5%
        44%
        76 bp
        10.2 M
        SRR12340083_2
        60.0%
        46%
        76 bp
        10.2 M
        SRR12340084_1
        72.8%
        44%
        76 bp
        8.0 M
        SRR12340084_2
        46.4%
        45%
        76 bp
        8.0 M
        SRR12340085_1
        73.3%
        44%
        76 bp
        7.9 M
        SRR12340085_2
        49.7%
        46%
        76 bp
        7.9 M
        SRR12340086_1
        80.8%
        45%
        76 bp
        9.3 M
        SRR12340086_2
        59.6%
        46%
        76 bp
        9.3 M
        SRR12340087_1
        66.9%
        44%
        76 bp
        7.5 M
        SRR12340087_2
        40.3%
        45%
        76 bp
        7.5 M
        SRR12340088_1
        70.9%
        44%
        76 bp
        8.3 M
        SRR12340088_2
        46.2%
        46%
        76 bp
        8.3 M
        SRR12340089_1
        67.3%
        45%
        76 bp
        8.6 M
        SRR12340089_2
        42.8%
        47%
        76 bp
        8.6 M
        SRR12340090_1
        75.9%
        45%
        76 bp
        7.6 M
        SRR12340090_2
        53.5%
        46%
        76 bp
        7.6 M
        SRR12340091_1
        82.1%
        52%
        76 bp
        7.9 M
        SRR12340091_2
        78.1%
        53%
        76 bp
        7.9 M
        SRR12340092_1
        66.4%
        48%
        76 bp
        8.1 M
        SRR12340092_2
        44.7%
        49%
        76 bp
        8.1 M
        SRR12340093_1
        73.1%
        50%
        76 bp
        8.5 M
        SRR12340093_2
        58.6%
        52%
        76 bp
        8.5 M
        SRR12340094_1
        90.4%
        49%
        76 bp
        8.3 M
        SRR12340094_2
        79.4%
        52%
        76 bp
        8.3 M
        SRR12340095_1
        76.9%
        50%
        76 bp
        6.3 M
        SRR12340095_2
        64.1%
        52%
        76 bp
        6.3 M
        SRR12340096_1
        52.4%
        48%
        76 bp
        4.7 M
        SRR12340096_2
        38.6%
        50%
        76 bp
        4.7 M
        SRR12340097_1
        61.9%
        50%
        76 bp
        4.9 M
        SRR12340097_2
        45.6%
        52%
        76 bp
        4.9 M
        SRR12340098_1
        47.3%
        48%
        76 bp
        3.9 M
        SRR12340098_2
        31.1%
        50%
        76 bp
        3.9 M
        SRR12340099_1
        80.5%
        53%
        76 bp
        4.5 M
        SRR12340099_2
        66.1%
        54%
        75 bp
        4.5 M
        SRR12340100_1
        62.6%
        50%
        76 bp
        5.2 M
        SRR12340100_2
        46.9%
        52%
        76 bp
        5.2 M
        SRR12340101_1
        80.6%
        44%
        76 bp
        6.7 M
        SRR12340101_2
        55.0%
        45%
        76 bp
        6.7 M
        SRR12340102_1
        74.3%
        46%
        76 bp
        8.5 M
        SRR12340102_2
        49.3%
        47%
        76 bp
        8.5 M
        SRR12340103_1
        72.1%
        44%
        76 bp
        9.0 M
        SRR12340103_2
        46.0%
        46%
        76 bp
        9.0 M
        SRR12340104_1
        74.5%
        44%
        76 bp
        7.5 M
        SRR12340104_2
        50.2%
        46%
        76 bp
        7.5 M
        SRR12340105_1
        52.8%
        45%
        76 bp
        7.3 M
        SRR12340105_2
        29.5%
        46%
        76 bp
        7.3 M
        SRR12340106_1
        73.4%
        43%
        76 bp
        9.3 M
        SRR12340106_2
        46.3%
        44%
        76 bp
        9.3 M
        SRR12340107_1
        66.4%
        45%
        76 bp
        8.7 M
        SRR12340107_2
        40.6%
        46%
        76 bp
        8.7 M

        FastQC

        Version: 0.12.1

        FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Counts

        Sequence counts for each sample. Duplicate read counts are an estimate only.

        This plot show the total number of reads, broken down into unique and duplicate if possible (only more recent versions of FastQC give duplicate info).

        You can read more about duplicate calculation in the FastQC documentation. A small part has been copied here for convenience:

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        Created with MultiQC

        Sequence Quality Histograms

        The mean quality value across each base position in the read.

        To enable multiple samples to be plotted on the same graph, only the mean quality scores are plotted (unlike the box plots seen in FastQC reports).

        Taken from the FastQC help:

        The y-axis on the graph shows the quality scores. The higher the score, the better the base call. The background of the graph divides the y axis into very good quality calls (green), calls of reasonable quality (orange), and calls of poor quality (red). The quality of calls on most platforms will degrade as the run progresses, so it is common to see base calls falling into the orange area towards the end of a read.

        Created with MultiQC

        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality.

        From the FastQC help:

        The per sequence quality score report allows you to see if a subset of your sequences have universally low quality values. It is often the case that a subset of sequences will have universally poor quality, however these should represent only a small percentage of the total sequences.

        Created with MultiQC

        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called.

        To enable multiple samples to be shown in a single plot, the base composition data is shown as a heatmap. The colours represent the balance between the four bases: an even distribution should give an even muddy brown colour. Hover over the plot to see the percentage of the four bases under the cursor.

        To see the data as a line plot, as in the original FastQC graph, click on a sample track.

        From the FastQC help:

        Per Base Sequence Content plots out the proportion of each base position in a file for which each of the four normal DNA bases has been called.

        In a random library you would expect that there would be little to no difference between the different bases of a sequence run, so the lines in this plot should run parallel with each other. The relative amount of each base should reflect the overall amount of these bases in your genome, but in any case they should not be hugely imbalanced from each other.

        It's worth noting that some types of library will always produce biased sequence composition, normally at the start of the read. Libraries produced by priming using random hexamers (including nearly all RNA-Seq libraries) and those which were fragmented using transposases inherit an intrinsic bias in the positions at which reads start. This bias does not concern an absolute sequence, but instead provides enrichement of a number of different K-mers at the 5' end of the reads. Whilst this is a true technical bias, it isn't something which can be corrected by trimming and in most cases doesn't seem to adversely affect the downstream analysis.

        Click a sample row to see a line plot for that dataset.
        Rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content.

        From the FastQC help:

        This module measures the GC content across the whole length of each sequence in a file and compares it to a modelled normal distribution of GC content.

        In a normal random library you would expect to see a roughly normal distribution of GC content where the central peak corresponds to the overall GC content of the underlying genome. Since we don't know the the GC content of the genome the modal GC content is calculated from the observed data and used to build a reference distribution.

        An unusually shaped distribution could indicate a contaminated library or some other kinds of biased subset. A normal distribution which is shifted indicates some systematic bias which is independent of base position. If there is a systematic bias which creates a shifted normal distribution then this won't be flagged as an error by the module since it doesn't know what your genome's GC content should be.

        Created with MultiQC

        Per Base N Content

        The percentage of base calls at each position for which an N was called.

        From the FastQC help:

        If a sequencer is unable to make a base call with sufficient confidence then it will normally substitute an N rather than a conventional base call. This graph shows the percentage of base calls at each position for which an N was called.

        It's not unusual to see a very low proportion of Ns appearing in a sequence, especially nearer the end of a sequence. However, if this proportion rises above a few percent it suggests that the analysis pipeline was unable to interpret the data well enough to make valid base calls.

        Created with MultiQC

        Sequence Length Distribution

        The distribution of fragment sizes (read lengths) found. See the FastQC help

        Created with MultiQC

        Sequence Duplication Levels

        The relative level of duplication found for every sequence.

        From the FastQC Help:

        In a diverse library most sequences will occur only once in the final set. A low level of duplication may indicate a very high level of coverage of the target sequence, but a high level of duplication is more likely to indicate some kind of enrichment bias (eg PCR over amplification). This graph shows the degree of duplication for every sequence in a library: the relative number of sequences with different degrees of duplication.

        Only sequences which first appear in the first 100,000 sequences in each file are analysed. This should be enough to get a good impression for the duplication levels in the whole file. Each sequence is tracked to the end of the file to give a representative count of the overall duplication level.

        The duplication detection requires an exact sequence match over the whole length of the sequence. Any reads over 75bp in length are truncated to 50bp for this analysis.

        In a properly diverse library most sequences should fall into the far left of the plot in both the red and blue lines. A general level of enrichment, indicating broad oversequencing in the library will tend to flatten the lines, lowering the low end and generally raising other categories. More specific enrichments of subsets, or the presence of low complexity contaminants will tend to produce spikes towards the right of the plot.

        Created with MultiQC

        Overrepresented sequences by sample

        The total amount of overrepresented sequences found in each library.

        FastQC calculates and lists overrepresented sequences in FastQ files. It would not be possible to show this for all samples in a MultiQC report, so instead this plot shows the number of sequences categorized as overrepresented.

        Sometimes, a single sequence may account for a large number of reads in a dataset. To show this, the bars are split into two: the first shows the overrepresented reads that come from the single most common sequence. The second shows the total count from all remaining overrepresented sequences.

        From the FastQC Help:

        A normal high-throughput library will contain a diverse set of sequences, with no individual sequence making up a tiny fraction of the whole. Finding that a single sequence is very overrepresented in the set either means that it is highly biologically significant, or indicates that the library is contaminated, or not as diverse as you expected.

        FastQC lists all the sequences which make up more than 0.1% of the total. To conserve memory only sequences which appear in the first 100,000 sequences are tracked to the end of the file. It is therefore possible that a sequence which is overrepresented but doesn't appear at the start of the file for some reason could be missed by this module.

        Created with MultiQC

        Top overrepresented sequences

        Top overrepresented sequences across all samples. The table shows 20 most overrepresented sequences across all samples, ranked by the number of samples they occur in.

        Showing 20/20 rows and 3/3 columns.
        Overrepresented sequenceSamplesOccurrences% of all reads
        NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
        176
        43437265
        3.2719%
        GGGCGACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGC
        70
        2011845
        0.1515%
        TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
        62
        2171010
        0.1635%
        GGGGCCGGGCGCGGTGGCGCGTGCCTGTAGTCCCAGCTACTCGGGAGGCT
        57
        929544
        0.0700%
        GGGGTCTACGGCCATACCACCCTGAACGCGCCCGATCTCGTCTGATCTCG
        48
        1028917
        0.0775%
        CCTGCAATTCACATTAATTCTCGCAGCTAGCTGCGTTCTTCATCGACGCA
        45
        1256814
        0.0947%
        CGTTTGAATATTTGCTACTACCACCAAGATCTGCACCTGCGGCGGCTCCA
        43
        735965
        0.0554%
        GTCCTGCAATTCACATTAATTCTCGCAGCTAGCTGCGTTCTTCATCGACG
        40
        883412
        0.0665%
        CCCGGGGCCGCAAGTGCGTTCGAAGTGTCGATGATCAATGTGTCCTGCAA
        33
        476485
        0.0359%
        GGGGCCGCAAGTGCGTTCGAAGTGTCGATGATCAATGTGTCCTGCAATTC
        32
        483283
        0.0364%
        GGGCCGGTTCACCCCTCCTTAGGCAACCTGGTGGTCCCCCGCTCCCGGGA
        31
        347050
        0.0261%
        GGGCGGCCGGGCGCGACCCGCTCCGGGGACAGTGCCAGGTGGGGAGTTTG
        31
        714828
        0.0538%
        GTATTCGTACTGAAAATCAAGATCAAGCGAGCTTTTGCCCTTCTGCTCCA
        30
        528468
        0.0398%
        GGCCGACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGC
        30
        602394
        0.0454%
        CCCGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
        29
        417112
        0.0314%
        CGCCTTAGGACACCTGCGTTACCGTTTGACAGGTGTACCGCCCCAGTCAA
        28
        432421
        0.0326%
        GTCCTGTATTGTTATTTTTCGTCACTACCTCCCCGGGTCGGGAGTGGGTA
        27
        307995
        0.0232%
        GGACGACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGC
        27
        372330
        0.0280%
        GGGGACTCTTAGCGGTGGATCACTCGGCTCGTGCGTCGATGAAGAACGCA
        27
        413787
        0.0312%
        GCAATTCACATTAATTCTCGCAGCTAGCTGCGTTCTTCATCGACGCACGA
        23
        517268
        0.0390%

        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position.

        Note that only samples with ≥ 0.1% adapter contamination are shown.

        There may be several lines per sample, as one is shown for each adapter detected in the file.

        From the FastQC Help:

        The plot shows a cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. Once a sequence has been seen in a read it is counted as being present right through to the end of the read so the percentages you see will only increase as the read length goes on.

        Created with MultiQC

        Status Checks

        Status for each FastQC section showing whether results seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        FastQC assigns a status for each section of the report. These give a quick evaluation of whether the results of the analysis seem entirely normal (green), slightly abnormal (orange) or very unusual (red).

        It is important to stress that although the analysis results appear to give a pass/fail result, these evaluations must be taken in the context of what you expect from your library. A 'normal' sample as far as FastQC is concerned is random and diverse. Some experiments may be expected to produce libraries which are biased in particular ways. You should treat the summary evaluations therefore as pointers to where you should concentrate your attention and understand why your library may not look random and diverse.

        Specific guidance on how to interpret the output of each module can be found in the relevant report section, or in the FastQC help.

        In this heatmap, we summarise all of these into a single heatmap for a quick overview. Note that not all FastQC sections have plots in MultiQC reports, but all status checks are shown in this heatmap.

        Created with MultiQC

        Software Versions

        Software Versions lists versions of software tools extracted from file contents.

        SoftwareVersion
        FastQC0.12.1